PDB entry 2f54

View 2f54 on RCSB PDB site
Description: Directed evolution of human T cell receptor CDR2 residues by phage display dramatically enhances affinity for cognate peptide-MHC without increasing apparent cross-reactivity
Class: immune system
Keywords: T-cell receptor, CDR2, Phage display, wild type sequence, high affinity, NY-ESO-1, IMMUNE SYSTEM
Deposited on 2005-11-25, released 2006-04-25
The last revision prior to the SCOPe 2.03 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 2.7 Å
R-factor: 0.225
AEROSPACI score: 0.28 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: hla class I histocompatibility antigen
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-A, HLAA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2f54a1, d2f54a2
  • Chain 'B':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Gene: B2M
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (1-99)
      • cloning artifact (0)
      • engineered (67)
      • engineered (91)
    Domains in SCOPe 2.03: d2f54b_
  • Chain 'C':
    Compound: Cancer/testis antigen 1B
    Species: synthetic, synthetic
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: T-cell receptor alpha chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2f54d1, d2f54d2
  • Chain 'E':
    Compound: T-cell receptor beta chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2f54e1, d2f54e2
  • Chain 'F':
    Compound: hla class I histocompatibility antigen
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-A, HLAA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2f54f1, d2f54f2
  • Chain 'G':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Gene: B2M
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (1-99)
      • cloning artifact (0)
      • engineered (67)
      • engineered (91)
    Domains in SCOPe 2.03: d2f54g_
  • Chain 'H':
    Compound: Cancer/testis antigen 1B
    Species: synthetic, synthetic
    Database cross-references and differences (RAF-indexed):
  • Chain 'K':
    Compound: T-cell receptor alpha chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2f54k1, d2f54k2
  • Chain 'L':
    Compound: T-cell receptor beta chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2f54l1, d2f54l2
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54A (A:)
    gshsmryfftsvsrpgrgeprfiavgyvddtqfvrfdsdaasqrmeprapwieqegpeyw
    dgetrkvkahsqthrvdlgtlrgyynqseagshtvqrmygcdvgsdwrflrgyhqyaydg
    kdyialkedlrswtaadmaaqttkhkweaahvaeqlraylegtcvewlrrylengketlq
    rtdapkthmthhavsdheatlrcwalsfypaeitltwqrdgedqtqdtelvetrpagdgt
    fqkwaavvvpsgqeqrytchvqheglpkpltlrw
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54B (B:)
    miqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskd
    wsfyllycteftptekdeyacrvnhvtlsqpcivkwdrdm
    

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >2f54D (D:)
    kqqvtqipaalsvpegenlvlncsftdsaiynlqwfrqdpggkltsllliqssqreqtsg
    rlnasldksagsstlyiaasqpgdsatylcavrptsggsyiptfgrgtslivhpyiqnpd
    pavyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavaws
    nksdfacanafnnsiipedtffpspe
    

    Sequence, based on observed residues (ATOM records): (download)
    >2f54D (D:)
    qqvtqipaalsvpegenlvlncsftdsaiynlqwfrqdpggkltsllliqssqreqtsgr
    lnasldksagsstlyiaasqpgdsatylcavrptsggsyiptfgrgtslivhpyiqnpdp
    avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
    ksdfacanafnnsiipedtffpspe
    

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54E (E:)
    gvtqtpkfqvlktgqsmtlqcaqdmnheymswyrqdpgmglrlihysvgagitdqgevpn
    gynvsrsttedfplrllsaapsqtsvyfcassyvgntgelffgegsrltvledlknvfpp
    evavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpal
    ndsryalssrlrvsatfwqdprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgra
    d
    

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54F (F:)
    gshsmryfftsvsrpgrgeprfiavgyvddtqfvrfdsdaasqrmeprapwieqegpeyw
    dgetrkvkahsqthrvdlgtlrgyynqseagshtvqrmygcdvgsdwrflrgyhqyaydg
    kdyialkedlrswtaadmaaqttkhkweaahvaeqlraylegtcvewlrrylengketlq
    rtdapkthmthhavsdheatlrcwalsfypaeitltwqrdgedqtqdtelvetrpagdgt
    fqkwaavvvpsgqeqrytchvqheglpkpltlrw
    

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54G (G:)
    miqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskd
    wsfyllycteftptekdeyacrvnhvtlsqpcivkwdrdm
    

  • Chain 'H':
    No sequence available.

  • Chain 'K':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54K (K:)
    kqqvtqipaalsvpegenlvlncsftdsaiynlqwfrqdpggkltsllliqssqreqtsg
    rlnasldksagsstlyiaasqpgdsatylcavrptsggsyiptfgrgtslivhpyiqnpd
    pavyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavaws
    nksdfacanafnnsiipedtffpspe
    

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2f54L (L:)
    gvtqtpkfqvlktgqsmtlqcaqdmnheymswyrqdpgmglrlihysvgagitdqgevpn
    gynvsrsttedfplrllsaapsqtsvyfcassyvgntgelffgegsrltvledlknvfpp
    evavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpal
    ndsryalssrlrvsatfwqdprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgra
    d